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Reply to "Reassessing genomic targeting of AID"

Nature Immunology volume 13, pages 798–800 (2012)Cite this article

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Yamane et al. respond:

Hogenbirk et al. have reanalyzed a subset of our published AID ChIP-Seq data1 by defining islands of enriched immunoprecipitation signals and applying a linear normalization protocol. On the basis of their analysis, they were unable to detect substantial differences between Aicda+/+ and Aicda−/− samples in immunoprecipitation signals. As explained in detail below, their results are inconsistent with our published findings because of the inappropriate use of linear normalization, which underestimates enrichment for AID relative to background and makes it impossible to measure the binding of AID at genes encoding immunoglobulins or across the genome.

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Figure 1: Enrichment for the AID signal in ChIP-Seq analysis.

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Authors and Affiliations

  1. Genomics and Immunity, National Institute of Arthritis, Musculoskeletal and Skin Diseases, US National Institutes of Health, Bethesda, Maryland, USA

    Arito Yamane, Wolfgang Resch & Rafael Casellas

  2. Laboratory of Molecular Immunology, Rockefeller University, New York, New York, USA

    Michel Nussezweig

  3. Howard Hughes Medical Institute, Rockefeller University, New York, New York, USA

    Michel Nussezweig

  4. National Cancer Institute, National Institutes of Health, Bethesda, Maryland, USA

    Rafael Casellas

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  1. Arito Yamane
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  2. Wolfgang Resch
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Correspondence to Rafael Casellas.

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Yamane, A., Resch, W., Nussezweig, M. et al. Reply to "Reassessing genomic targeting of AID". Nat Immunol 13, 798–800 (2012). https://doi.org/10.1038/ni.2368

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